NetBenchmark: a bioconductor package for reproducible benchmarks of gene regulatory network inference

Supervised, semi-supervised and unsupervised inference of gene regulatory networks

(2013) S. R. Maetschke et al.   BRIEFINGS IN BIOINFORMATICS

Predictive regulatory models in Drosophila melanogaster by integrative inference of transcriptional networks

(2012) D. Marbach et al.   GENOME RESEARCH

Wisdom of crowds for robust gene network inference

(2012) Daniel Marbach et al.   NATURE METHODS

Gene regulatory network inference: evaluation and application to ovarian cancer allows the prioritization of drug targets

(2012) Piyush B Madhamshettiwar et al.   Genome Medicine

GeneNetWeaver: in silico benchmark generation and performance profiling of network inference methods

(2011) Thomas Schaffter et al.   BIOINFORMATICS

Revealing differences in gene network inference algorithms on the network level by ensemble methods

(2010) Gökmen Altay et al.   BIOINFORMATICS

Inferring the conservative causal core of gene regulatory networks

(2010) Gökmen Altay et al.   BMC Systems Biology

Towards a Rigorous Assessment of Systems Biology Models: The DREAM3 Challenges

(2010) Robert J. Prill et al.   PLoS One

Inferring Regulatory Networks from Expression Data Using Tree-Based Methods

(2010) Vân Anh Huynh-Thu et al.   PLoS One

Revealing strengths and weaknesses of methods for gene network inference

(2010) D. Marbach et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Identification of Functional Elements and Regulatory Circuits by Drosophila modENCODE

(2010) et al.   SCIENCE

Rank of Correlation Coefficient as a Comparable Measure for Biological Significance of Gene Coexpression

(2009) T. Obayashi et al.   DNA RESEARCH

Combining partial correlation and an information theory approach to the reversed engineering of gene co-expression networks

(2008) Antonio Reverter et al.   BIOINFORMATICS